TarDB: A miRNA Target Database in Plants.


TarDB employs cross-species conservation filter, degradome and sRNA-seq data to identify high-confidence miRNA targets in plants.



miRNA ID

ath-miR828

Organism

Arabidopsis thaliana

Species

Mature miRNA Sequence(5'-3')

UCUUGCUUAAAUGAGUAUUCCA

miRBase

Precursor miRNA Sequence(5'-3')

GUGACAAAGUCACAAAAGUGAUAAACUCUCCUUUCCACUUUCUAAUGUUUCUUGCUUAAAUGAGUAUUCCAUGUAAAAAUGAUUCACUCACUCGUAUGGGUGGGUUGGGUUUUCUCUUCAUGAGAUGCUCAUUUGAGCAAGCAAUGUUUGGAAGUGGGACUAUUUAAUAUCAUGUAUGAGUUUUAUCUUUU

miRBase

Precursor miRNA Structure(5'-3') 

GUGACAAAGUCAC     UGAU      --------------UCCU          U      U                  C    UAAAAAU      -       G 
             AAAAG    AAACUC                  UUCCACUUUC AAUGUU CUUGCUUAAAUGAGUAUU CAUG       GAUUCA CUCACUC U
             |||||    ||||||                  |||||||||| |||||| |||||||||||||||||| ||||       |||||| |||||||  
             UUUUC    UUUGAG                  AGGGUGAAGG UUGUAA GAACGAGUUUACUCGUAG GUAC       UUGGGU GGGUGGG G
-------------     -UAU      UAUGUACUAUAAUUUAUC          U      C                  A    UUCUCUU      U       U

Homologous Mature miRNAs   miRNAs are clustered by CD-HIT with sequence identity of >85% and word size of 5.

ath-miR828          UCUUGCUUAAAUGAGUAUUCCA
aly-miR828-5p       UCUUGCUUAAAUGAGUAUUCCA
lus-miR828a         UCUUGCUCAAAUGAGUGUUCCA
mes-miR828b         UCUUGCUCAAAUGAGUAUUCCA
mes-miR828a         UCUUGCUCAAAUGAGUAUUCCA
mdm-miR828b         UCUUGCUCAAAUGAGUAUUCCA
mdm-miR828a         UCUUGCUCAAAUGAGUAUUCCA
ptc-miR828b-5p      UCUUGCUCAAAUGAGUAUUCCA
ptc-miR828a         UCUUGCUCAAAUGAGUAUUCCA
ppe-miR828-5p       UCUUGCUCAAAUGAGUAUUCCA
gma-miR828b         UCUUGCUCAAAUGAGUAUUCCA
gma-miR828a         UCUUGCUCAAAUGAGUAUUCCA
vvi-miR828a         UCUUGCUCAAAUGAGUAUUCCA
mac-miR828          UCUUGCUCAAGUGAGUAUUCCA
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